Genome-wide association study of prevalent and persistent cervical high-risk human papillomavirus (HPV) infection

BMC Medical Genetics

Table 3 Associations of the Top 20 SNPS with Persistent Cervical high-risk Infections

SNP	Chr	Base Position	Near gene	Reference allele	MAF	OR	95% CI	P-value
–	5	10,847,898	DAP^a	C	–	6.87	3.41–13.84	7.15 × 10⁻⁸
rs143668247	1	199,701,882	NR5A2	C	0.35	3.66	2.24–5.97	2.03 × 10⁻⁷
rs200516199	17	29,917,727	MIR365–2	TTTGA	0.04	7.71	3.54–16.78	2.63 × 10^− 7
rs116834259	20	42,742,258	JPH2	T	0.11	4.42	2.50–7.81	3.15 × 10^− 7
rs11452236	20	42,751,590	JPH2	C	0.13	4.03	2.34–6.92	4.78 × 10^− 7
rs74358070	20	42,727,587	JPH2	T	0.11	4.24	2.41–7.47	5.52 × 10⁻⁷
rs16832308	2	133,253,243	GPR390	A	0.04	6.30	3.05–13.01	6.49 × 10⁻⁷
rs62167448	2	133,254,091	GPR39	C	0.04	6.30	3.05–13.01	6.49 × 10⁻⁷
rs150410476	11	37,223,676	C11orf74	A	0.03	8.31	3.60–19.16	6.80 × 10⁻⁷
rs12740341	1	199,699,781	NR5A2	C	0.26	3.18	2.01–5.03	7.94 × 10⁻⁷
rs79032354	20	42,732,460	JPH2	C	0.13	3.91	2.27–6.71	7.96 × 10⁻⁷
rs6130527	20	42,733,946	JPH2	G	0.13	3.91	2.27–6.71	7.96 × 10⁻⁷
rs4810411	20	42,751,472	JPH2	C	0.13	3.81	2.24–6.50	7.99 × 10⁻⁷
rs2502139	1	199,695,633	NR5A2	A	0.27	3.17	2.00–5.02	8.94 × 10⁻⁷
rs34026413	1	199,695,074	NR5A2	A	0.27	3.10	1.97–4.88	7.94 × 10⁻⁶
–	1	26,304,144	PAFAH2^a	C	–	10.19	4.01–25.92	7.94 × 10^− 6
rs543084794	2	133,250,145	GPR39^a	C	0.04	6.44	3.04–13.65	7.94 × 10^− 6
rs79014529	20	42,717,781	TOX2	C	0.13	3.81	2.22–6.53	7.94 × 10^− 6
rs1429702	1	199,694,059	NR5A2	T	0.27	3.10	1.96–4.87	7.94 × 10⁻⁶
rs6130520	20	42,716,399	TOX2	G	0.13	3.77	2.20–6.47	7.94 × 10⁻⁶

For this analysis, 51 women with hrHPV infection at both the baseline and follow-up visits were compared to 355 women without hrHPV infections at either the baseline or follow-up visits. Base positions were based on hg19; ^aThe variant is not in 1000 genomes v1, the nearest gene was obtained from variants surrounding the base location on the specific chromosome; Odds Ratio (OR) and 95% Confidence Intervals (CI) were estimated using an additive genetic model; Models were adjusted for age, HIV status and the first principal components of the genotypes

ISSN: 1471-2350